masif
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LPDI-EPFL
MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.
Hi. I tried to train MaSIF-site and got the following. It is still training, but slowly. 2021-11-10 14:06:26.243439: W tensorflow/core/common_runtime/colocation_graph.cc:983] Failed to place the graph without changing the devices of...
In the Masif search process after running the descriptors, I am. Unable to run the second_alignment_nn. Py successfully the pretrained model doesn't load. Any hint can u provide the correct...
Following the docker tutorial of MaSIF-site, I can generate an "ID_chain.ply" file. But how can I get per-residue predictions?
Hi, Thanks for showing your work on MASIF. I was trying to understand the process a little more in depth, in particular how the angular and radial coordinates for each...
Hello, Thanks for your work on MaSIF and for making the source code available! I'm running MaSIF in the supplied docker container, with some tweaks (for example, I changed the...
`Bio.PDB.PDBList()` [disallows](https://github.com/biopython/biopython/blob/bdcaa7312217229dde48b206b31e5c2f06fc3613/Bio/PDB/PDBList.py#L64) the downloading of structures >62 chains or >99999 ATOM lines using the `'pdb'` (.ent) format. Attempting this gives a "Desired structure doesn't exist" error. There are a couple...
Should be `./compute_descriptors.sh -l lists/testing.txt`.
Hi, I have run masif_ppi_search on the PDB 6M3M_A and have gotten two output files labeled: p1_desc_flipped.npy and p1_desc_straight.npy I cannot find documented what these two files mean and how...
 I would like to get other proteins' ground_truth '.ply' files,where can I search it?
